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  • Information for New JOREK Users
  • Compiling and Running
    • Getting Started
      • Tutorials
      • Compile
      • Hard-Coded Parameters
      • Preprocessor Flags
      • Run
      • leonardo_cpu_with_gnu_openmpi
      • leonardo_cpu_with_intel_oneapi
      • leonardo_cpu_with_raven_libraries
      • Systems
        • Leonardo-CPU
        • LUMI-CPU
        • Pitagora-CPU
        • Pitagora-GPU
        • IPP Garching
        • ITER Cluster
        • EUROfusion Gateway
        • TGCC-CEA
        • MacOS
    • List of input parameters
  • Code Development
    • Coding Guidelines
    • Development Workflow
    • Regression Tests
      • NRT preparation with rsync
    • Plot memory usage
  • Physics Models
    • Notation Conventions
    • Normalization
    • Vector Identities
    • Coordinate Systems
    • Base Fluid Models
      • Reduced MHD models
      • Tokamak Full MHD
      • Stellarator Reduced MHD
      • Magnetic Vector Potential
      • Current Expression
      • Vorticity Expression
      • Stream Function and Electric Potential Expression
      • The j x B Term Expression
      • The v x B Term Expression
      • The Continuity Equation Expression
      • The Poloidal Flux Equation Expression
      • The Diamagnetic Vorticity Expression
      • Derivation of the Parallel Momentum Equation
      • Weak-Form Resistive Term in Full MHD
    • Kinetic Particle Module
      • Energetic Ion
      • Known issues
      • Neutrals and Impurities
        • Gas Puffing
        • Impurity Collisions
        • Atomic Processes
        • Coupling Scheme
        • Neutral neutral collisions
        • Introduction to the particle wall_actions
        • Run with kinetic neutrals and impurities
      • Particle types
      • Particle pushers
      • Kinetic Runaway Electrons
        • Running with Kinetic Runaway Electrons
      • Kinetic timestepping
    • Model Extensions
      • Free Boundary Extension (STARWALL, CARIDDI)
        • Free-boundary references
          • real_space2bezier (Guido's notes)
        • JOREK-STARWALL tutorial example (intear)
        • Running JOREK in free-boundary mode
        • Running and setting up STARWALL
        • Running and setting up CARIDDI
        • Free-boundary diagnostics and tools
      • Impurities
        • Atomic physics in with_neutrals and with_impurities models
        • Impurities — Fluid Model
        • Impurities — Marker Model
        • ADAS Atomic Data
      • Neutrals
        • Neutrals — Fluid Model
      • Runaway Electrons
        • REs — Fluid Model
    • JOREK-STARWALL
    • Macroscopic_vars.dat
  • Numerics and Tools
    • Spatial Discretization
      • Introduction to Bezier surfaces
      • Introduction to spatial discretization
      • Poloidal discretization
      • Spatial discretization and mesh
    • Spatial Discretization
      • Introduction to Bezier surfaces
      • Introduction to spatial discretization
      • Poloidal discretization
      • Spatial discretization and mesh
    • Grids
      • Double X-point Grid Construction
      • Grad-Shafranov Tutorial
      • Gn-continuous Grid Construction
      • Wall-extended Grid Construction
      • Alternative Wall-extended Grid Construction
      • X-point Grid Construction
    • Time Integration
    • Element Matrix FFT
    • Solver and Preconditioner
    • Sparse Matrix Format
    • Random-Number Generators
    • HDF5 Tools
  • Howto
    • First Steps
      • Get Started with JOREK
      • Get Started with JOREK-STARWALL
      • Get Started with JOREK-CARIDDI
      • Get Started with JOREK Diagnostics
      • Paraview plugin
    • Grid and Equilibrium
      • Set Up a JOREK Simulation Grid
      • Create an X-Point Plasma from a Limiter Plasma
    • Physics Options
      • Run with Diamagnetic Drift
      • Vpar smoothing at grazing angles
      • Run with Neoclassical Effects
      • Include Diamagnetic Drift in Viscosity
      • Choose Boundary Conditions
      • Run with RMPs
      • Run with Ohmic Heating
      • Run with Sheath Heat-Flux BC
      • Get D_perp and ZK_perp for Stationary Profiles
      • Check Energy Conservation
      • Set Up Spitzer Resistivity
      • Activate the Inward Pinch Term
      • Computing Parallel Electric Field in JOREK
      • Helicity Conservation
      • Use the Controller Module
    • Numerics and Stabilization
      • Run with Taylor-Galerkin Stabilization
      • Correct Negative Densities / Temperatures
      • Run with Mode Groups in Preconditioner
      • Use Shock Capturing Features
      • Variable MultiScale (VMS) Stabilization
      • Run with Non-Linear Time-Stepping (Newton)
      • Compress the Response Matrices
    • Impurities, Neutrals and Fuelling
      • Run an MGI Simulation
      • Run an SPI Simulation
      • Run with Kinetic Neutrals and Impurities
      • Run Particle Simulations with Neutral Collisions
    • Kinetic Particles
      • Use Phase Space Projections
      • Assess Particle Wall Loads with Particle Tracker
      • Generate Poincaré Plots with Particle Tracker
      • Runaway Electron Physics in Particle Tracker
      • Compile and Run the Particle Fast Camera
    • Post-processing
      • Calculate B Outside and Inside the JOREK Grid
      • Calculate Total Wall Forces
      • Assess Fluid Loads on 3D Walls
      • Plot Equation Terms in VTK
      • Show Time in Paraview Plots
      • Reconstruct Namelist Input Parameter Changes
    • Stellarator
      • Run Stellarator Simulations
      • Run Stellarator Model with Divertor Region
  • Machines
    • ITER
    • JET
      • JET ELM tutorial
      • KB5 bolometer
    • ASDEX Upgrade
      • Active controller model for vertical stabilization
      • PF coils
  • Contributing to the Docs
  • FAQ
  • Publication Rules
  • JOREK Logo
  • Code License
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  • JOREK Website

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JOREK Documentation